Structure of PDB 7e7m Chain D Binding Site BS01

Receptor Information

>7e7m Chain D (length=273) Species: 1311 (Streptococcus agalactiae)

GVSISTTNNPYFVAMKDGIDKYASNKKISIKVADAQDDAARQADDVQNFI
SQNVDAILINPVDSKAIVTAIKSANNANIPVILMDRGSEGGKVLTTVASD
NVAAGKMAADYAVKKLGKKAKAFELSGVPGASATVDRGKGFHSVAKSKLD
MLSSQSANFDRAKALNTTQNMIQGHKDVQIIFAQNDEMALGAAQAVKSAG
LQNVLIVGIDGQPDAHDAIKKGDISATIAQQPAKMGEIAIQAAIDYYKGK
KVEKETISPIYLVTKDNVEKYNW

Ligand information

• Ligand ID: RIP
• InChI: InChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3-,4-,5-/m1/s1
• InChIKey: SRBFZHDQGSBBOR-TXICZTDVSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C1C(C(C(C(O1)O)O)O)O
  OpenEye OEToolkits 1.5.0: C1[C@H]([C@H]([C@H]([C@@H](O1)O)O)O)O
  CACTVS 3.341: O[CH]1CO[CH](O)[CH](O)[CH]1O
  CACTVS 3.341: O[C@@H]1CO[C@@H](O)[C@H](O)[C@@H]1O
  ACDLabs 10.04: OC1C(O)COC(O)C1O
• Formula: C5 H10 O5
• Name: beta-D-ribopyranose;
  beta-D-ribose;
  D-ribose;
  ribose;
  RIBOSE(PYRANOSE FORM)
• ChEMBL: CHEMBL1159662
• DrugBank: DB04286
• ZINC: ZINC000004097544
• PDB chain: 7e7m Chain D Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7e7m Crystal Structure Analysis of the Streptococcus agalactiae Ribose Binding Protein RbsB
• Resolution: 2.85 Å
• Binding residue (original residue number in PDB): N58 Y60 F61 D134 R135 R186 F208 N234 D259 Q279
• Binding residue (residue number reindexed from 1): N9 Y11 F12 D85 R86 R137 F159 N185 D210 Q230
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0030246 carbohydrate binding

External links

• PDB: RCSB:7e7m, PDBe:7e7m, PDBj:7e7m
• PDBsum: 7e7m
• UniProt: Q8E283